User profiles for K. M. Naegle

Kristen M. Naegle

University of Virginia
Verified email at virginia.edu
Cited by 1156

Avoiding common pitfalls when clustering biological data

T Ronan, Z Qi, KM Naegle - Science signaling, 2016 - science.org
Clustering is an unsupervised learning method, which groups data points based on similarity,
and is used to reveal the underlying structure of data. This computational approach is …

[HTML][HTML] Injury-induced HDAC5 nuclear export is essential for axon regeneration

Y Cho, R Sloutsky, KM Naegle, V Cavalli - Cell, 2013 - cell.com
Reactivation of a silent transcriptional program is a critical step in successful axon
regeneration following injury. Yet how such a program is unlocked after injury remains largely …

[PDF][PDF] A path to translation: How 3D patient tumor avatars enable next generation precision oncology

…, F Meric-Bernstam, CA Meyer, H Mou, KM Naegle… - Cancer cell, 2022 - cell.com
3D patient tumor avatars (3D-PTAs) hold promise for next-generation precision medicine.
Here, we describe the benefits and challenges of 3D-PTA technologies and necessary future …

Phosphoproteomics of collagen receptor networks reveals SHP-2 phosphorylation downstream of wild-type DDR2 and its lung cancer mutants

…, S Gridley, B Leitinger, KM Naegle… - Biochemical …, 2013 - portlandpress.com
Collagen is an important extracellular matrix component that directs many fundamental
cellular processes including differentiation, proliferation and motility. The signalling networks …

Predicting patient response to the antiarrhythmic mexiletine based on genetic variation: personalized medicine for long QT syndrome

…, JD Moreno, P Angsutararux, KM Naegle… - Circulation …, 2019 - Am Heart Assoc
Rationale: Mutations in the SCN5A gene, encoding the α subunit of the Nav1.5 channel, cause
a life-threatening form of cardiac arrhythmia, long QT syndrome type 3 (LQT3). Mexiletine…

[HTML][HTML] Different Epidermal Growth Factor Receptor (EGFR) Agonists Produce Unique Signatures for the Recruitment of Downstream Signaling Proteins*♦

…, L Huelsmann, NJ Bessman, KM Naegle… - Journal of Biological …, 2016 - ASBMB
The EGF receptor can bind seven different agonist ligands. Although each agonist appears
to stimulate the same suite of downstream signaling proteins, different agonists are capable …

ProteomeScout: a repository and analysis resource for post-translational modifications and proteins

…, AS Holehouse, KM Naegle - Nucleic acids research, 2015 - academic.oup.com
… We are grateful to John Naegle for help with webpage styling, Brook Haley for help with
logo design, and Tom Ronan and Roman Sloutsky for critical reading and manuscript …

[HTML][HTML] Ten simple rules for effective presentation slides

KM Naegle - PLoS computational biology, 2021 - journals.plos.org
Naegle … Citation: Naegle KM (2021) Ten simple rules for effective presentation slides.
PLoS Comput Biol 17(12): e1009554. https://doi.org/10.1371/journal.pcbi.1009554 …

[HTML][HTML] KSTAR: An algorithm to predict patient-specific kinase activities from phosphoproteomic data

…, BT Jordan, H Ahmed, CX Ma, KM Naegle - Nature …, 2022 - nature.com
Kinase inhibitors as targeted therapies have played an important role in improving cancer
outcomes. However, there are still considerable challenges, such as resistance, non-response…

Accounting for noise when clustering biological data

…, N Jimenez, SJ Swamidass, KM Naegle - Briefings in …, 2013 - academic.oup.com
Clustering is a powerful and commonly used technique that organizes and elucidates the
structure of biological data. Clustering data from gene expression, metabolomics and …